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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ), 'gf_id' => 'HOM05D001014', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001014' ), 'data_identifier' => 'HOM05D001014', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001014', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '597', 'num_species' => '90' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p19910' => 'bna', 'A01p31340' => 'bna', 'A01p36000' => 'bna', 'A02p14890' => 'bna', 'A03p50440' => 'bna', 'A05p31350' => 'bna', 'A06p04210' => 'bna', 'A07p12560' => 'bna', 'A07p32030' => 'bna', 'A07p34750' => 'bna', 'A08p04450' => 'bna', 'A08p26930' => 'bna', 'A09p21990' => 'bna', 'A09p39230' => 'bna', 'Aa31LG10G14510' => 'aar', 'Aa31LG3G1450' => 'aar', 'Aa31LG6G190' => 'aar', 'Aa31LG7G9140' => 'aar', 'Aa31LG8G5160' => 'aar', 'Actinidia10844' => 'ach', 'Actinidia12158' => 'ach', 'Actinidia13656' => 'ach', 'Actinidia16667' => 'ach', 'Actinidia16668' => 'ach', 'Actinidia18925' => 'ach', 'Actinidia31509' => 'ach', 'Actinidia35094' => 'ach', 'Actinidia38375' => 'ach', 'Actinidia40392' => 'ach', 'Ah.02g127590' => 'amhyb', 'Ah.09g229870' => 'amhyb', 'AL1G39960' => 'aly', 'AL1G55490' => 'aly', 'AL2G27180' => 'aly', 'AL3G31540' => 'aly', 'AL5G42660' => 'aly', 'AL7G37220' => 'aly', 'Aqoxy3G00254' => 'aox', 'Aqoxy3G02803' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2IFY3G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6G2TCX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6XTP94' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A1A6G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KP105' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AGG1KT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DA53FY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E179ZT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FEG3IM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJ27AX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6N1I3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PRF4ET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PSIL1C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YV2IKS' => 'arhy', 'AT1G25370' => 'ath', 'AT1G48770' => 'ath', 'AT1G68340' => 'ath', 'AT3G18295' => 'ath', 'AT3G60410' => 'ath', 'AT4G17440' => 'ath', 'Atru.chr11.147' => 'acertr', 'Atru.chr5.167' => 'acertr', 'Atru.chr5.168' => 'acertr', 'Atru.chr9.1262' => 'acertr', 'Atru.chr9.869' => 'acertr', 'AUR62002846' => 'cqu', 'AUR62007122' => 'cqu', 'AUR62019991' => 'cqu', 'AUR62021299' => 'cqu', 'AUR62033217' => 'cqu', 'AUR62037314' => 'cqu', 'BcaB03g12028' => 'bca', 'BcaB03g14038' => 'bca', 'BcaB03g15411' => 'bca', 'BcaB03g15816' => 'bca', 'BcaB03g15817' => 'bca', 'BcaB03g15819' => 'bca', 'BcaB04g17386' => 'bca', 'BcaB04g20776' => 'bca', 'BcaB05g24365' => 'bca', 'BcaB07g31389' => 'bca', 'BcaB07g33719' => 'bca', 'BcaB08g35194' => 'bca', 'BcaC01g01688' => 'bca', 'BcaC03g14938' => 'bca', 'BcaC03g16861' => 'bca', 'BcaC05g26472' => 'bca', 'BcaC05g26678' => 'bca', 'BcaC06g33569' => 'bca', 'BcaC06g35217' => 'bca', 'BcaC07g37104' => 'bca', 'BcaC07g40560' => 'bca', 'BcaC07g42782' => 'bca', 'BcaC07g42783' => 'bca', 'BcaC08g43078' => 'bca', 'BcaC08g45976' => 'bca', 'BcaC09g48791' => 'bca', 'BcaC09g48792' => 'bca', 'BcaC09g50470' => 'bca', 'BcaNung00092' => 'bca', 'BcaNung03463' => 'bca', 'BolC1t02440H' => 'bol', 'BolC1t03948H' => 'bol', 'BolC1t04549H' => 'bol', 'BolC1t04802H' => 'bol', 'BolC2t08548H' => 'bol', 'BolC3t19597H' => 'bol', 'BolC5t31248H' => 'bol', 'BolC6t38869H' => 'bol', 'BolC6t39260H' => 'bol', 'BolC7t42367H' => 'bol', 'BolC7t45383H' => 'bol', 'BolC8t47274H' => 'bol', 'BolC9t57488H' => 'bol', 'BraA01t01917Z' => 'bra', 'BraA01t03259Z' => 'bra', 'BraA01t03681Z' => 'bra', 'BraA02t06556Z' => 'bra', 'BraA03t11945Z' => 'bra', 'BraA03t13218Z' => 'bra', 'BraA03t14134Z' => 'bra', 'BraA05t21973Z' => 'bra', 'BraA06t23626Z' => 'bra', 'BraA07t29034Z' => 'bra', 'BraA07t30833Z' => 'bra', 'BraA07t31093Z' => 'bra', 'BraA08t32471Z' => 'bra', 'BraA08t34639Z' => 'bra', 'BraA09t39422Z' => 'bra', 'BraA09t40698Z' => 'bra', 'C01p24950' => 'bna', 'C01p39930' => 'bna', 'C01p45870' => 'bna', 'C02p24400' => 'bna', 'C02p47550' => 'bna', 'C03p72970' => 'bna', 'C05p25150' => 'bna', 'C05p47650' => 'bna', 'C06p03370' => 'bna', 'C06p37660' => 'bna', 'C06p37690' => 'bna', 'C06p41660' => 'bna', 'C07p18560' => 'bna', 'C07p48750' => 'bna', 'C08p04740' => 'bna', 'C09p46240' => 'bna', 'CAN.G25.19' => 'can', 'CAN.G402.6' => 'can', 'CAN.G610.63' => 'can', 'CANSAT01G2118' => 'cansat', 'CARHR026120' => 'chi', 'CARHR038740' => 'chi', 'CARHR061050' => 'chi', 'CARHR093660' => 'chi', 'CARHR170730' => 'chi', 'CARHR224050' => 'chi', 'Carub.0001s2515' => 'cru', 'Carub.0001s3792' => 'cru', 'Carub.0002s1484' => 'cru', 'Carub.0003s1808' => 'cru', 'Carub.0005s2714' => 'cru', 'Carub.0007s2398' => 'cru', 'Ca_04900_v3' => 'car', 'Ca_11149_v3' => 'car', 'Ca_21991_v3' => 'car', 'Ca_23130_v3' => 'car', 'Ca_26371_v3' => 'car', 'Cc00_g20450' => 'ccan', 'Cc08_g12060' => 'ccan', 'Cc11_g09900' => 'ccan', 'CDE02G0460' => 'cde', 'CDE02G4390' => 'cde', 'CDE06G1037' => 'cde', 'CDE08G0818' => 'cde', 'CDE08G1569' => 'cde', 'CDE12G0069' => 'cde', 'Cfa012695' => 'cfa', 'Ciclev10016320m.g' => 'ccl', 'Ciclev10021338m.g' => 'ccl', 'Ciclev10022000m.g' => 'ccl', 'CiPaw.05G239600' => 'cil', 'CiPaw.06G018500' => 'cil', 'CiPaw.11G082600' => 'cil', 'CiPaw.12G049600' => 'cil', 'CiPaw.13G028200' => 'cil', 'CiPaw.14G022000' => 'cil', 'ClCG01G004270' => 'cla', 'ClCG05G022580' => 'cla', 'ClCG06G008240' => 'cla', 'ClCG06G014690' => 'cla', 'ClCG08G004930' => 'cla', 'COL.COLO4_12433' => 'col', 'COL.COLO4_32387' => 'col', 'COL.COLO4_32388' => 'col', 'COL.COLO4_37108' => 'col', 'Cpa.g.sc101.33' => 'cpa', 'Cpa.g.sc101.34' => 'cpa', 'Cpa.g.sc132.43' => 'cpa', 'Cpa.g.sc3.489' => 'cpa', 'Cpa.g.sc65.46' => 'cpa', 'Cpa.g.sc89.65' => 'cpa', 'CsaV3_5G004470' => 'csa', 'CsaV3_6G003250' => 'csa', 'CSS0007170' => 'camsi', 'CSS0007343' => 'camsi', 'CSS0009086' => 'camsi', 'CSS0022895' => 'camsi', 'CSS0023383' => 'camsi', 'CSS0029672' => 'camsi', 'CSS0035616' => 'camsi', 'CSS0036135' => 'camsi', 'CSS0039665' => 'camsi', 'CSS0046084' => 'camsi', 'DCAR_006846' => 'dca', 'DCAR_008515' => 'dca', 'DCAR_008516' => 'dca', 'DCAR_011360' => 'dca', 'DCAR_023646' => 'dca', 'DCAR_025074' => 'dca', 'DCAR_029775' => 'dca', 'DCAR_030170' => 'dca', 'Dinv15695' => 'din', 'Dinv21059' => 'din', 'Dinv21667' => 'din', 'Dinv28122' => 'din', 'Dinv31620' => 'din', 'Dinv39176' => 'din', 'Dinv43638' => 'din', 'Dinv44078' => 'din', 'Duzib068G0391' => 'dzi', 'Duzib084G1008' => 'dzi', 'Duzib133G1174' => 'dzi', 'Duzib138G0015' => 'dzi', 'Duzib205G1606' => 'dzi', 'Duzib248G1557' => 'dzi', 'Duzib251G0908' => 'dzi', 'Duzib268G0769' => 'dzi', 'Duzib268G1879' => 'dzi', 'ECA233G1708' => 'eca', 'ECA233G2408' => 'eca', 'ECA233G5273' => 'eca', 'ECA234G1141' => 'eca', 'ECA234G3899' => 'eca', 'ECA236G1391' => 'eca', 'ECA240G0260' => 'eca', 'EL10Ac5g12333' => 'bvu', 'EL10Ac8g18283' => 'bvu', 'Eucgr.B03003' => 'egr', 'Eucgr.D02104' => 'egr', 'Eucgr.E00401' => 'egr', 'Eucgr.E02484' => 'egr', 'Eucgr.G02307' => 'egr', 'Eucgr.G02774' => 'egr', 'Eucgr.J02648' => 'egr', 'FAN04G0375' => 'fan', 'FAN07G0276' => 'fan', 'FAN08G3045' => 'fan', 'FAN10G1403' => 'fan', 'FAN10G2363' => 'fan', 'FAN11G2068' => 'fan', 'FAN12G1683' => 'fan', 'FAN12G1959' => 'fan', 'FAN12G3994' => 'fan', 'FAN13G2782' => 'fan', 'FAN17G1652' => 'fan', 'FAN18G3617' => 'fan', 'FAN21G0455' => 'fan', 'FAN22G0030' => 'fan', 'FAN23G0597' => 'fan', 'FAN24G2356' => 'fan', 'FAN25G1845' => 'fan', 'FAN26G0283' => 'fan', 'FvH4_3g31902' => 'fve', 'FvH4_4g15242' => 'fve', 'FvH4_4g27050' => 'fve', 'FvH4_5g19550' => 'fve', 'FvH4_7g09720' => 'fve', 'Glyma.05G062500' => 'gma', 'Glyma.05G237600' => 'gma', 'Glyma.06G256900' => 'gma', 'Glyma.07G093600' => 'gma', 'Glyma.10G272500' => 'gma', 'Glyma.17G144400' => 'gma', 'Glyma.20G117400' => 'gma', 'Gohir.A05G321700' => 'ghi', 'Gohir.A08G059400' => 'ghi', 'Gohir.A08G167700' => 'ghi', 'Gohir.A11G076700' => 'ghi', 'Gohir.A12G142000' => 'ghi', 'Gohir.A12G215100' => 'ghi', 'Gohir.D05G324000' => 'ghi', 'Gohir.D08G068600' => 'ghi', 'Gohir.D08G186500' => 'ghi', 'Gohir.D11G081100' => 'ghi', 'Gohir.D12G146900' => 'ghi', 'Gohir.D12G217700' => 'ghi', 'Gorai.004G071800' => 'gra', 'Gorai.004G196000' => 'gra', 'Gorai.007G086800' => 'gra', 'Gorai.008G158100' => 'gra', 'Gorai.008G233300' => 'gra', 'Gorai.009G347700' => 'gra', 'GSVIVG01005818001' => 'vvi', 'GSVIVG01008316001' => 'vvi', 'GSVIVG01011869001' => 'vvi', 'GSVIVG01018286001' => 'vvi', 'GSVIVG01023569001' => 'vvi', 'HanXRQChr03g0074521' => 'han', 'HanXRQChr03g0088951' => 'han', 'HanXRQChr06g0164471' => 'han', 'HanXRQChr06g0168731' => 'han', 'HanXRQChr08g0213641' => 'han', 'HanXRQChr08g0213651' => 'han', 'HanXRQChr11g0341031' => 'han', 'HanXRQChr11g0341041' => 'han', 'HanXRQChr17g0567451' => 'han', 'Haze_00622' => 'cav', 'Haze_02749' => 'cav', 'Haze_02801' => 'cav', 'Haze_07938' => 'cav', 'Hma1.2p1_0729F.1_g209500' => 'hma', 'Hma1.2p1_1136F.1_g260600' => 'hma', 'Hma1.2p1_1740F.1_g300031' => 'hma', 'Hma1.2p1_1875F.1_g306270' => 'hma', 'Hma1.2p1_1952F.1_g308810' => 'hma', 'HPP92_000175' => 'vpl', 'HPP92_004800' => 'vpl', 'HPP92_006397' => 'vpl', 'HPP92_008195' => 'vpl', 'HPP92_008196' => 'vpl', 'HPP92_011526' => 'vpl', 'HPP92_023129' => 'vpl', 'HPP92_023130' => 'vpl', 'HPP92_026101' => 'vpl', 'Hund20773' => 'sun', 'Hund26349' => 'sun', 'Lalb_Chr02g0145861' => 'lal', 'Lalb_Chr05g0217781' => 'lal', 'Lalb_Chr05g0221111' => 'lal', 'Lalb_Chr06g0165981' => 'lal', 'Lalb_Chr10g0100091' => 'lal', 'Lalb_Chr13g0290451' => 'lal', 'Lalb_Chr14g0371061' => 'lal', 'Lalb_Chr16g0382931' => 'lal', 'Lalb_Chr16g0386591' => 'lal', 'Lalb_Chr24g0397871' => 'lal', 'Lj2g0011517' => 'lja', 'Lj2g0025548' => 'lja', 'Lj3A1013G40' => 'lonja', 'Lj3g0024136' => 'lja', 'Lj4g0011640' => 'lja', 'Lj5g0003958' => 'lja', 'Lj5g0012772' => 'lja', 'Lj5g0027592' => 'lja', 'Lj6A755G12' => 'lonja', 'Lj6E755G0' => 'lonja', 'Lj7A542T24' => 'lonja', 'Lj7C542G10' => 'lonja', 'Lj7C542T8' => 'lonja', 'Lj7P543T31' => 'lonja', 'Lj9A425T44' => 'lonja', 'Lj9P559T19' => 'lonja', 'Lsat_1_v5_gn_4_16260' => 'lsa', 'Lsat_1_v5_gn_4_16280' => 'lsa', 'Lsat_1_v5_gn_4_16300' => 'lsa', 'Lsat_1_v5_gn_4_27161' => 'lsa', 'Lsat_1_v5_gn_4_46660' => 'lsa', 'Lsat_1_v5_gn_4_46740' => 'lsa', 'Lsat_1_v5_gn_6_93480' => 'lsa', 'Lsat_1_v5_gn_7_10501' => 'lsa', 'Lsat_1_v5_gn_8_40400' => 'lsa', 'Lsat_1_v5_gn_8_40440' => 'lsa', 'Manes.01G014000' => 'mes', 'Manes.01G084300' => 'mes', 'Manes.01G271700' => 'mes', 'Manes.02G041700' => 'mes', 'Manes.05G052800' => 'mes', 'Manes.05G114900' => 'mes', 'Manes.06G066300' => 'mes', 'Manes.14G104600' => 'mes', 'MBI09_g35838_MAGBIO' => 'mbi', 'MBI14_g12724_MAGBIO' => 'mbi', 'MBI14_g43561_MAGBIO' => 'mbi', 'MD04G1061000' => 'mdo', 'MD06G1054500' => 'mdo', 'MD13G1039500' => 'mdo', 'MD16G1040400' => 'mdo', 'Medtr1g110360' => 'mtr', 'Medtr1g110370' => 'mtr', 'Medtr4g086830' => 'mtr', 'Medtr4g100570' => 'mtr', 'Medtr5g056040' => 'mtr', 'Medtr5g056110' => 'mtr', 'Medtr5g083820' => 'mtr', 'Medtr6g008660' => 'mtr', 'Medtr6g083920' => 'mtr', 'Medtr8g005205' => 'mtr', 'MELO3C005512.2' => 'cme', 'MELO3C011520.2' => 'cme', 'MELO3C012261.2' => 'cme', 'MELO3C017319.2' => 'cme', 'Migut.B01555' => 'egut', 'Migut.E00358' => 'egut', 'Migut.H01528' => 'egut', 'Migut.L01048' => 'egut', 'Migut.N01754' => 'egut', 'MSTRG.12128' => 'ama', 'MSTRG.13545' => 'ama', 'MSTRG.14667' => 'ama', 'MSTRG.17141' => 'ama', 'MSTRG.20703' => 'ama', 'MSTRG.2226' => 'ama', 'MSTRG.28158' => 'ama', 'MSTRG.4923' => 'ama', 'MSTRG.7656' => 'ama', 'MSTRG.852' => 'ama', 'Nitab4.5_0000057g0140' => 'nta', 'Nitab4.5_0000057g0150' => 'nta', 'Nitab4.5_0000123g0290' => 'nta', 'Nitab4.5_0000210g0070' => 'nta', 'Nitab4.5_0000345g0120' => 'nta', 'Nitab4.5_0001590g0080' => 'nta', 'Nitab4.5_0004337g0030' => 'nta', 'Nitab4.5_0004981g0010' => 'nta', 'Nitab4.5_0004981g0020' => 'nta', 'Nitab4.5_0004981g0030' => 'nta', 'Nitab4.5_0007091g0010' => 'nta', 'Nn2g11708' => 'nnu', 'Nn3g17894' => 'nnu', 'Nn4g23898' => 'nnu', 'Nn7g38346' => 'nnu', 'Nn8g39134' => 'nnu', 'Oeu018993.1' => 'oeu', 'Oeu018995.1' => 'oeu', 'Oeu028310.1' => 'oeu', 'Oeu034225.1' => 'oeu', 'Oeu034226.1' => 'oeu', 'Oeu035669.1' => 'oeu', 'Oeu035670.1' => 'oeu', 'Oeu040700.1' => 'oeu', 'Oeu057728.1' => 'oeu', 'Oeu063223.1' => 'oeu', 'Os01g0132500' => 'osa', 'Os01g0688600' => 'osa', 'Os01g0689000' => 'osa', 'Os05g0551350' => 'osa', 'Os05g0551600' => 'osa', 'Peaxi162Scf00001g00608' => 'pax', 'Peaxi162Scf00346g01015' => 'pax', 'Peaxi162Scf00564g00034' => 'pax', 'Peaxi162Scf00564g00315' => 'pax', 'Peaxi162Scf00753g00218' => 'pax', 'PGR042G2940' => 'pgr', 'PGR042G3459' => 'pgr', 'PGSC0003DMG400005977' => 'stu', 'PGSC0003DMG400005978' => 'stu', 'PGSC0003DMG400014573' => 'stu', 'PGSC0003DMG400025699' => 'stu', 'PGSC0003DMG400026238' => 'stu', 'Phvul.002G317700' => 'pvu', 'Phvul.003G036300' => 'pvu', 'Phvul.003G223000' => 'pvu', 'Phvul.004G156044' => 'pvu', 'Phvul.007G029200' => 'pvu', 'Potri.002G136200' => 'ptr', 'Potri.008G122600' => 'ptr', 'Potri.010G122700' => 'ptr', 'Potri.012G055200' => 'ptr', 'Potri.014G044600' => 'ptr', 'Potri.014G044700' => 'ptr', 'Potri.014G044800' => 'ptr', 'Prupe.1G313700' => 'ppe', 'Prupe.2G125500' => 'ppe', 'Prupe.5G064500' => 'ppe', 'Psat1g036800' => 'psa', 'Psat2g097280' => 'psa', 'Psat4g073360' => 'psa', 'Psat4g225560' => 'psa', 'Psat6g225920' => 'psa', 'PSO063G3393' => 'pso', 'PSO782G1093' => 'pso', 'QL01p040747' => 'qlo', 'QL04p031181' => 'qlo', 'QL12p011206' => 'qlo', 'RcHm_v2.0_Chr1g0346661' => 'rch', 'RcHm_v2.0_Chr2g0122051' => 'rch', 'RcHm_v2.0_Chr4g0434851' => 'rch', 'RcHm_v2.0_Chr7g0204161' => 'rch', 'Rhsim07G0034400' => 'rsi', 'Rhsim07G0115300' => 'rsi', 'Rhsim09G0105900' => 'rsi', 'Rhsim09G0106000' => 'rsi', 'Rhsim12G0085500' => 'rsi', 'Sabra02G0105700' => 'sbr', 'Sabra08G0093100' => 'sbr', 'Sabra10G0092800' => 'sbr', 'Sabra12G0038900' => 'sbr', 'Sabra14G0032500' => 'sbr', 'Sabra14G0032600' => 'sbr', 'Sabra15G0040000' => 'sbr', 'SalBow4G1004' => 'sbo', 'SalBow5G0767' => 'sbo', 'SalBow5G2054' => 'sbo', 'SalBow5G3217' => 'sbo', 'SalBow5G4056' => 'sbo', 'SalBow7G1348' => 'sbo', 'SalBow7G1696' => 'sbo', 'SalBow8G0611' => 'sbo', 'SalBow8G2474' => 'sbo', 'Sc01g0008250' => 'sci', 'Sc04g0006200' => 'sci', 'Sc11g0003490' => 'sci', 'Sc14g0007310' => 'sci', 'Sc14g0007380' => 'sci', 'Sed0000023' => 'sed', 'Sed0000200' => 'sed', 'Sed0012257' => 'sed', 'Sed0013545' => 'sed', 'Sed0015002' => 'sed', 'Sed0023333' => 'sed', 'Sed0024398' => 'sed', 'SGA_v2.0_scaffold116G32304' => 'sas', 'SGA_v2.0_scaffold14G06882' => 'sas', 'SGA_v2.0_scaffold153G36921' => 'sas', 'SGA_v2.0_scaffold159G37701' => 'sas', 'SGA_v2.0_scaffold170G38780' => 'sas', 'SGA_v2.0_scaffold19G08606' => 'sas', 'SGA_v2.0_scaffold38G14961' => 'sas', 'SGA_v2.0_scaffold43G16529' => 'sas', 'SGA_v2.0_scaffold49G18273' => 'sas', 'SHI26954' => 'shi', 'Solyc04g007340.4' => 'sly', 'Solyc04g007350.3' => 'sly', 'Solyc05g009200.3' => 'sly', 'Solyc08g078310.3' => 'sly', 'Solyc10g039360.2' => 'sly', 'Sopen04g002400' => 'spe', 'Sopen04g002410' => 'spe', 'Sopen05g004920' => 'spe', 'Sopen08g026810' => 'spe', 'Sopen10g012080' => 'spe', 'Sp1g22850' => 'spa', 'Sp1g35690' => 'spa', 'Sp3g16430' => 'spa', 'Sp5g02810' => 'spa', 'Sp7g16740' => 'spa', 'TAR371G0250' => 'tar', 'TAR371G0340' => 'tar', 'TAR374G1372' => 'tar', 'TAR374G1540' => 'tar', 'TAR375G0837' => 'tar', 'TAR622G0562' => 'tar', 'THA.LOC104808336' => 'tha', 'THA.LOC104812809' => 'tha', 'THA.LOC104820388' => 'tha', 'THA.LOC104820683' => 'tha', 'THA.LOC104821917' => 'tha', 'Thecc.01G392000' => 'tca', 'Thecc.02G225600' => 'tca', 'Thecc.03G247100' => 'tca', 'Thhalv10006081m.g' => 'esa', 'Thhalv10008407m.g' => 'esa', 'Thhalv10018875m.g' => 'esa', 'Thhalv10021480m.g' => 'esa', 'Thhalv10026175m.g' => 'esa', 'TPR.G15358' => 'tpr', 'TPR.G33140' => 'tpr', 'TPR.G37584' => 'tpr', 'TPR.G38255' => 'tpr', 'TPR.G4867' => 'tpr', 'TWI23G0475' => 'twi', 'TWI31G1439' => 'twi', 'TWI79G1172' => 'twi', 'TWI81G0723' => 'twi', 'unitig_22.g5779' => 'ugi', 'unitig_27.g25254' => 'ugi', 'unitig_699.g19486' => 'ugi', 'unitig_699.g19518' => 'ugi', 'unitig_749.g13633' => 'ugi', 'vmacro10572' => 'vma', 'vmacro10573' => 'vma', 'vmacro13482' => 'vma', 'VMungo0251G2831' => 'vmu', 'VMungo0251G3271' => 'vmu', 'VMungo0464G1264' => 'vmu', 'VMungo0720G2796' => 'vmu', 'Zm00001eb125270' => 'zma', 'Zm00001eb156310' => 'zma', 'Zm00001eb156330' => 'zma', 'Zm00001eb236020' => 'zma', 'Zm00001eb266210' => 'zma', 'Zm00001eb294940' => 'zma', 'Zm00001eb294960' => 'zma', 'Zm00001eb314400' => 'zma', 'Zm00001eb335230' => 'zma', 'Zm00001eb336150' => 'zma', 'Zm00001eb342910' => 'zma', 'Zm00001eb360570' => 'zma' ) $gf_id = 'HOM05D001014' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001014' ) $data_identifier = 'HOM05D001014' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 30, 'aar' => (int) 5, 'ach' => (int) 10, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 14, 'ath' => (int) 6, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 30, 'bol' => (int) 13, 'bra' => (int) 16, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 6, 'cfa' => (int) 1, 'ccl' => (int) 3, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 2, 'camsi' => (int) 10, 'dca' => (int) 8, 'din' => (int) 8, 'dzi' => (int) 9, 'eca' => (int) 7, 'bvu' => (int) 2, 'egr' => (int) 7, 'fan' => (int) 18, 'fve' => (int) 5, 'gma' => (int) 7, 'ghi' => (int) 12, 'gra' => (int) 6, 'vvi' => (int) 5, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 2, 'lal' => (int) 10, 'lja' => (int) 7, 'lonja' => (int) 9, 'lsa' => (int) 10, 'mes' => (int) 8, 'mbi' => (int) 3, 'mdo' => (int) 4, 'mtr' => (int) 10, 'cme' => (int) 4, 'egut' => (int) 5, 'ama' => (int) 10, 'nta' => (int) 11, 'nnu' => (int) 5, 'oeu' => (int) 10, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 2, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 7, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 2, 'qlo' => (int) 3, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sas' => (int) 9, 'shi' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 5, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb360570' $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